RetrogeneDB ID: | retro_ocun_807 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 15:65276021..65277202(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NUFIP2 | ||
| Ensembl ID: | ENSOCUG00000016483 | ||
| Aliases: | None | ||
| Description: | nuclear fragile X mental retardation protein interacting protein 2 [Source:HGNC Symbol;Acc:17634] |
Retrocopy-Parental alignment summary:
>retro_ocun_807
CTTGGGGAAAGCTCAGATATAAAACCTGGTGTGAGCAGCAAAAAGGTTGCTGATCGGCCCAAAGGAAAGCATGCCTCGGC
TGTTGCCTCCAAGGAGGACCTGTGGACCCTATTGAAACCACCCCCAGTTTTTCCAGTGGACAATAGCAGTGCTAAAATCC
TTCCTAAAATAAGTTATGCAAGCAAAGTTAAGGAAAACCTCAATAAAACTAAACAGAACTCTGTGTCACCATCTTCGCCC
TCATCCTCTTCATCATCTACTGGAGAAACTCAGACACAATCTTCAAGTCGGTTATCCCAGCTTCCTCTGCCGGCACTGAA
ATCTGTTACTTCTGCCAGCTTTTCTAACGGGCCTGTCGAAGCAGGGACTGATGCAAGTGTGTATCCTCCAGGGGGCCAGC
CACTGCTAACTACTGCTGCTAATACTTTAACACCCATCTCTTCTGGGGCTGATTCAGTGCTCCAGGACGTGAGTCTAACT
TCAGCAGCTGTTAAACAAATAAAGCCTAGCCTTTTTATTTATCCTTCAAATATGCAAACTGTGCTTTTAAGCACAGCACA
AGTGGATCTGCCCTCTCAGACCGATCAACAAAACCTGGGGGATATCTTCCAGAATCACTGGGGTTTATGATTTATAAATG
AGCCCAGTGCTGGCCCTGAGGCTGTTACTGGGAAGTCATCTGATCATAAAGTGGTGGAGGTGACATTTCAAGGAGAATAT
CCTGCCACTTTGGTTTCACAGGGAGCTGAATAATCCCCTCAGGAACTGAGCATCCTGTGGTTCCCAAGGCTTATGAGCTG
GAGAAACGGACTAGTGCTCAAGTTCTGAGTAGCATTCTAAAATCTGGGACTACTGAGAGGGGAGCCTTATCCTTGGAACC
CAGTCATATAGGTGACCTGCAAAAAGCAGACACCAGTAGTCAAGGTGCTTTAGTGTTTCTCTCAAAGGACTATGAGATAG
AAAATCAAAATCCTCTGGCCTCTCCTGCGAACACTGTGTAGGGCTCCTCCAAAGAACAGAGATACCAGAGAGGCCTAGAA
AGGAAAAATAGCTGGGGTTCTTTTGACCTGAGGGCTGCTATTGTATCTCACACTAAAGAAATGGAATCTATTTGGAATTT
GCAGAAGCAAGATCCCAAAAGGATAATCACTTACAATGAAGCCATGGCTAGTCCAGATCAA
ORF - retro_ocun_807 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.16 % |
| Parental protein coverage: | 56.75 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LRKSSDIKPGVSSKKFDDRPKGKHASAVASKEDSWTLFKPPPVFPVDNSSAKIVPKISYASKVKENLNKT |
| L..SSDIKPGVSSKK..DRPKGKHASAVASKED.WTL.KPPPVFPVDNSSAKI.PKISYASKVKENLNKT | |
| Retrocopy | LGESSDIKPGVSSKKVADRPKGKHASAVASKEDLWTLLKPPPVFPVDNSSAKILPKISYASKVKENLNKT |
| Parental | IQNSVSPSSSSSSSSSTGETQTQSSSRLSQVPMSALKSVTSASFSNGPVLAGTDANVYPPGGQPLLTTAA |
| .QNSVSPSS.SSSSSSTGETQTQSSSRLSQ.P..ALKSVTSASFSNGPV.AGTDA.VYPPGGQPLLTTAA | |
| Retrocopy | KQNSVSPSSPSSSSSSTGETQTQSSSRLSQLPLPALKSVTSASFSNGPVEAGTDASVYPPGGQPLLTTAA |
| Parental | NTLTPISSGTDSVLQDVSLTSAAVEQIKSSLFIYPSNMQTVLLSTAQVDLPSQTDQQNLGDIFQNQWGLS |
| NTLTPISSG.DSVLQDVSLTSAAV.QIK.SLFIYPSNMQTVLLSTAQVDLPSQTDQQNLGDIFQN.WGL. | |
| Retrocopy | NTLTPISSGADSVLQDVSLTSAAVKQIKPSLFIYPSNMQTVLLSTAQVDLPSQTDQQNLGDIFQNHWGL* |
| Parental | FINEPSAGPETVIGKSSDHKVVEVTFQGEYPATLVSQGAE-IIPSGTEHPVFPKAYELEKRTSPQVLSNI |
| FINEPSAGPE.V.GKSSDHKVVEVTFQGEYPATLVSQGAE.IIPSGTEHPV.PKAYELEKRTS.QVLS.I | |
| Retrocopy | FINEPSAGPEAVTGKSSDHKVVEVTFQGEYPATLVSQGAE<IIPSGTEHPVVPKAYELEKRTSAQVLSSI |
| Parental | LKSGTTNESGALSLEPSHIGDLQKADTSSQGALVFLSKDYEIENQNPLASPTNTLLGSAKEQRYQRGLER |
| LKSGTT.E.GALSLEPSHIGDLQKADTSSQGALVFLSKDYEIENQNPLASP.NT..GS.KEQRYQRGLER | |
| Retrocopy | LKSGTT-ERGALSLEPSHIGDLQKADTSSQGALVFLSKDYEIENQNPLASPANTV*GSSKEQRYQRGLER |
| Parental | NDSWGSFDLRAAIVYHTKEMESIWNLQKQDPKRIITYNEAMDSPDQ |
| ..SWGSFDLRAAIV.HTKEMESIWNLQKQDPKRIITYNEAM.SPDQ | |
| Retrocopy | KNSWGSFDLRAAIVSHTKEMESIWNLQKQDPKRIITYNEAMASPDQ |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP017611_brain | 0 .06 RPM | 25 .39 RPM |
| SRP017611_kidney | 0 .00 RPM | 31 .02 RPM |
| SRP017611_liver | 0 .00 RPM | 29 .06 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_807 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_807 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_807 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000033077 | 1 retrocopy | |
| Oryctolagus cuniculus | ENSOCUG00000016483 | 1 retrocopy |
retro_ocun_807 ,
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